Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1120330 | XP_003624413.1 | 96.923 | 130 | 4 | 0 | 1 | 130 | 1 | 130 | 3.72e-90 | 267 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1120330 | G7KVA0 | 96.923 | 130 | 4 | 0 | 1 | 130 | 1 | 130 | 1.78e-90 | 267 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0374040 | Msa1120330 | 0.809000 | 2.348567e-50 | -8.615850e-47 |
| Msa1022490 | Msa1120330 | 0.801594 | 8.366330e-49 | -8.615850e-47 |
| Msa1022510 | Msa1120330 | 0.810402 | 1.173598e-50 | -8.615850e-47 |
| Msa1069400 | Msa1120330 | 0.879177 | 1.540927e-69 | -8.615850e-47 |
| Msa1108370 | Msa1120330 | 0.801035 | 1.088437e-48 | -8.615850e-47 |
| Msa1108560 | Msa1120330 | 0.801319 | 9.524656e-49 | -8.615850e-47 |
| Msa0538440 | Msa1120330 | 0.811406 | 7.112282e-51 | -8.615850e-47 |
| Msa0538530 | Msa1120330 | 0.801336 | 9.447736e-49 | -8.615850e-47 |
| Msa0896920 | Msa1120330 | 0.811147 | 8.094923e-51 | -8.615850e-47 |
| Msa0964510 | Msa1120330 | 0.825042 | 5.815448e-54 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1120330 | MtrunA17_Chr7g0251401 | 96.923 | 130 | 4 | 0 | 1 | 130 | 1 | 130 | 3.42e-94 | 267 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTCAATTCTTTGTCTCTTT+TGG | 0.156795 | 7_3:+69644462 | None:intergenic |
| CAAATTCGCATCTACTATAT+CGG | 0.330910 | 7_3:+69644600 | None:intergenic |
| TATGCTCCTCTTGGTTTCAT+AGG | 0.336107 | 7_3:+69644848 | None:intergenic |
| AGAAGCTTCATTCAGTTGAT+TGG | 0.356827 | 7_3:-69644442 | Msa1120330:CDS |
| TGAAACAAGGCAAAGGAAAA+AGG | 0.362535 | 7_3:+69644378 | None:intergenic |
| CTCTTGAGATATGCTCCTCT+TGG | 0.383087 | 7_3:+69644839 | None:intergenic |
| TGCGAATTTGAATGTTCTAA+AGG | 0.459511 | 7_3:-69644587 | Msa1120330:CDS |
| TTATGATCATTTATAGAAAG+TGG | 0.481384 | 7_3:+69644490 | None:intergenic |
| GATAGAGATGGTGAAGGTGA+AGG | 0.495568 | 7_3:-69644560 | Msa1120330:CDS |
| GGAGAGGATAGAGATGGTGA+AGG | 0.500705 | 7_3:-69644566 | Msa1120330:CDS |
| TATGATCATTTATAGAAAGT+GGG | 0.519015 | 7_3:+69644491 | None:intergenic |
| GTACAAAACTATCAAGATGA+AGG | 0.539004 | 7_3:-69644782 | Msa1120330:intron |
| AAGAGATTCAACACACGTCA+AGG | 0.556892 | 7_3:-69644821 | Msa1120330:CDS |
| AGGTTCCAGCAAAAGAGGTA+AGG | 0.567585 | 7_3:+69644398 | None:intergenic |
| GTTGCAAATGTCAACATGGT+TGG | 0.570101 | 7_3:-69644522 | Msa1120330:CDS |
| ATTTGAATGTTCTAAAGGAG+AGG | 0.592303 | 7_3:-69644582 | Msa1120330:CDS |
| TCTAAAGGAGAGGATAGAGA+TGG | 0.611605 | 7_3:-69644572 | Msa1120330:CDS |
| AGAGATTCAACACACGTCAA+GGG | 0.627969 | 7_3:-69644820 | Msa1120330:CDS |
| TTCTTACCTATGAAACCAAG+AGG | 0.628103 | 7_3:-69644854 | Msa1120330:CDS |
| CAAGCATTGAAACAAGGCAA+AGG | 0.629878 | 7_3:+69644371 | None:intergenic |
| AATGAGCAAGCATTGAAACA+AGG | 0.640206 | 7_3:+69644365 | None:intergenic |
| AGGTGAAGGAAAGATTTGAA+AGG | 0.644485 | 7_3:-69644546 | Msa1120330:CDS |
| AGGTGTTGCAAATGTCAACA+TGG | 0.719860 | 7_3:-69644526 | Msa1120330:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATCAACAAAAAATAACACT+TGG | + | chr7_3:69644502-69644521 | None:intergenic | 20.0% |
| !! | TATGATCATTTATAGAAAGT+GGG | + | chr7_3:69644741-69644760 | None:intergenic | 20.0% |
| !! | TTATGATCATTTATAGAAAG+TGG | + | chr7_3:69644742-69644761 | None:intergenic | 20.0% |
| ! | AGCTATCTAATCATAATCAT+AGG | - | chr7_3:69644598-69644617 | Msa1120330:CDS | 25.0% |
| ! | GCTATCTAATCATAATCATA+GGG | - | chr7_3:69644599-69644618 | Msa1120330:CDS | 25.0% |
| GTACAAAACTATCAAGATGA+AGG | - | chr7_3:69644447-69644466 | Msa1120330:CDS | 30.0% | |
| CAAATTCGCATCTACTATAT+CGG | + | chr7_3:69644632-69644651 | None:intergenic | 30.0% | |
| TGCGAATTTGAATGTTCTAA+AGG | - | chr7_3:69644642-69644661 | Msa1120330:intron | 30.0% | |
| !! | ATTTGAATGTTCTAAAGGAG+AGG | - | chr7_3:69644647-69644666 | Msa1120330:intron | 30.0% |
| ! | TCTCAATTCTTTGTCTCTTT+TGG | + | chr7_3:69644770-69644789 | None:intergenic | 30.0% |
| !!! | CAGTTGATTGGTTTAGTTTT+TGG | - | chr7_3:69644799-69644818 | Msa1120330:CDS | 30.0% |
| !!! | GGTTTAGTTTTTGGAACTAT+TGG | - | chr7_3:69644808-69644827 | Msa1120330:CDS | 30.0% |
| TTCTTACCTATGAAACCAAG+AGG | - | chr7_3:69644375-69644394 | Msa1120330:CDS | 35.0% | |
| AGGTGAAGGAAAGATTTGAA+AGG | - | chr7_3:69644683-69644702 | Msa1120330:intron | 35.0% | |
| AGAAGCTTCATTCAGTTGAT+TGG | - | chr7_3:69644787-69644806 | Msa1120330:CDS | 35.0% | |
| TGAAACAAGGCAAAGGAAAA+AGG | + | chr7_3:69644854-69644873 | None:intergenic | 35.0% | |
| !! | AATGAGCAAGCATTGAAACA+AGG | + | chr7_3:69644867-69644886 | None:intergenic | 35.0% |
| TATGCTCCTCTTGGTTTCAT+AGG | + | chr7_3:69644384-69644403 | None:intergenic | 40.0% | |
| AAGAGATTCAACACACGTCA+AGG | - | chr7_3:69644408-69644427 | Msa1120330:CDS | 40.0% | |
| AGAGATTCAACACACGTCAA+GGG | - | chr7_3:69644409-69644428 | Msa1120330:CDS | 40.0% | |
| TCTAAAGGAGAGGATAGAGA+TGG | - | chr7_3:69644657-69644676 | Msa1120330:intron | 40.0% | |
| ! | AGGTGTTGCAAATGTCAACA+TGG | - | chr7_3:69644703-69644722 | Msa1120330:intron | 40.0% |
| GTTGCAAATGTCAACATGGT+TGG | - | chr7_3:69644707-69644726 | Msa1120330:intron | 40.0% | |
| GAAAAAGGTTCCAGCAAAAG+AGG | + | chr7_3:69644839-69644858 | None:intergenic | 40.0% | |
| !! | CAAGCATTGAAACAAGGCAA+AGG | + | chr7_3:69644861-69644880 | None:intergenic | 40.0% |
| CTCTTGAGATATGCTCCTCT+TGG | + | chr7_3:69644393-69644412 | None:intergenic | 45.0% | |
| GATAGAGATGGTGAAGGTGA+AGG | - | chr7_3:69644669-69644688 | Msa1120330:intron | 45.0% | |
| !!! | ATTGGCCTTACCTCTTTTGC+TGG | - | chr7_3:69644826-69644845 | Msa1120330:CDS | 45.0% |
| AGGTTCCAGCAAAAGAGGTA+AGG | + | chr7_3:69644834-69644853 | None:intergenic | 45.0% | |
| !! | TATATTATAATAGTATTATT+TGG | - | chr7_3:69644529-69644548 | Msa1120330:CDS | 5.0% |
| GGAGAGGATAGAGATGGTGA+AGG | - | chr7_3:69644663-69644682 | Msa1120330:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 69644354 | 69644897 | 69644354 | ID=Msa1120330;Name=Msa1120330 |
| chr7_3 | mRNA | 69644354 | 69644897 | 69644354 | ID=Msa1120330-mRNA-1;Parent=Msa1120330;Name=Msa1120330-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|0|0|1|1|1|2|0|130 |
| chr7_3 | exon | 69644783 | 69644897 | 69644783 | ID=Msa1120330-mRNA-1:exon:17661;Parent=Msa1120330-mRNA-1 |
| chr7_3 | exon | 69644354 | 69644631 | 69644354 | ID=Msa1120330-mRNA-1:exon:17660;Parent=Msa1120330-mRNA-1 |
| chr7_3 | CDS | 69644783 | 69644897 | 69644783 | ID=Msa1120330-mRNA-1:cds;Parent=Msa1120330-mRNA-1 |
| chr7_3 | CDS | 69644354 | 69644631 | 69644354 | ID=Msa1120330-mRNA-1:cds;Parent=Msa1120330-mRNA-1 |
| Gene Sequence |
| Protein sequence |
